miRNA display CGI


Results 1 - 20 of 50 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
30542 3' -54.2 NC_006548.1 + 16312 0.66 0.6572
Target:  5'- -cGCCacuGGUGGCGAuCUcccggccaaGGGCGGGCUu -3'
miRNA:   3'- gaCGGg--UUACCGUUuGA---------CUCGUCCGG- -5'
30542 3' -54.2 NC_006548.1 + 37474 0.66 0.6572
Target:  5'- uUGCCCAccaGCGAGCUaGGCGguucugauuuGGCCg -3'
miRNA:   3'- gACGGGUuacCGUUUGAcUCGU----------CCGG- -5'
30542 3' -54.2 NC_006548.1 + 16969 0.66 0.6572
Target:  5'- aUGCCCGccGGCAu-----GCAGGCg -3'
miRNA:   3'- gACGGGUuaCCGUuugacuCGUCCGg -5'
30542 3' -54.2 NC_006548.1 + 4457 0.66 0.6572
Target:  5'- aUGUugCCGAUGGCcAGCggguaGAGCuGGCUc -3'
miRNA:   3'- gACG--GGUUACCGuUUGa----CUCGuCCGG- -5'
30542 3' -54.2 NC_006548.1 + 18171 0.66 0.650287
Target:  5'- -cGCCCAAUGGCuggggaugccaguGCUcAGuCAGcGCCu -3'
miRNA:   3'- gaCGGGUUACCGuu-----------UGAcUC-GUC-CGG- -5'
30542 3' -54.2 NC_006548.1 + 13736 0.66 0.646827
Target:  5'- cCUGCUCGAUGGCGuccagccgguaggagAGCUGuucaugguucgccaGGCGuGCCu -3'
miRNA:   3'- -GACGGGUUACCGU---------------UUGAC--------------UCGUcCGG- -5'
30542 3' -54.2 NC_006548.1 + 2330 0.66 0.645674
Target:  5'- gUGCCgAaggcAUGGCAGcacACuUGAGCgAGGCg -3'
miRNA:   3'- gACGGgU----UACCGUU---UG-ACUCG-UCCGg -5'
30542 3' -54.2 NC_006548.1 + 19120 0.66 0.645674
Target:  5'- gUGCUCAAcgcgGGCAGcgcagcGCUgggagauccGAGCGGGCUu -3'
miRNA:   3'- gACGGGUUa---CCGUU------UGA---------CUCGUCCGG- -5'
30542 3' -54.2 NC_006548.1 + 14662 0.66 0.645674
Target:  5'- -cGCgCCAGgcgcuGCucGCUGAGCAgaaGGCCa -3'
miRNA:   3'- gaCG-GGUUac---CGuuUGACUCGU---CCGG- -5'
30542 3' -54.2 NC_006548.1 + 3677 0.66 0.634134
Target:  5'- -aGCgCCGAggcGGUGAACUGGcGCuGGCUg -3'
miRNA:   3'- gaCG-GGUUa--CCGUUUGACU-CGuCCGG- -5'
30542 3' -54.2 NC_006548.1 + 13670 0.66 0.622592
Target:  5'- uCU-CCUAccGGCuGGACgccaucGAGCAGGCCg -3'
miRNA:   3'- -GAcGGGUuaCCG-UUUGa-----CUCGUCCGG- -5'
30542 3' -54.2 NC_006548.1 + 14706 0.66 0.622592
Target:  5'- aUGCCCAGcaagGGCGGAgUGAcCgAGGCg -3'
miRNA:   3'- gACGGGUUa---CCGUUUgACUcG-UCCGg -5'
30542 3' -54.2 NC_006548.1 + 610 0.66 0.622592
Target:  5'- aUGCCCA--GGCc--CUG-GCAGaGCCg -3'
miRNA:   3'- gACGGGUuaCCGuuuGACuCGUC-CGG- -5'
30542 3' -54.2 NC_006548.1 + 25141 0.66 0.621439
Target:  5'- -cGCCCcuggaucGGUGGCcg---GGGCGGGCUg -3'
miRNA:   3'- gaCGGG-------UUACCGuuugaCUCGUCCGG- -5'
30542 3' -54.2 NC_006548.1 + 23962 0.66 0.607604
Target:  5'- -cGCCCGGccUGGCAggcgcucgcGACUGccaacucguccaggGGCAGGUg -3'
miRNA:   3'- gaCGGGUU--ACCGU---------UUGAC--------------UCGUCCGg -5'
30542 3' -54.2 NC_006548.1 + 21261 0.66 0.599548
Target:  5'- gUGCUacc-GGCAGcCUGGGC-GGCCa -3'
miRNA:   3'- gACGGguuaCCGUUuGACUCGuCCGG- -5'
30542 3' -54.2 NC_006548.1 + 17607 0.66 0.599548
Target:  5'- -cGCCCAggccAUGGCcgagGGGCUGgaGGCAgcucaccuGGCCg -3'
miRNA:   3'- gaCGGGU----UACCG----UUUGAC--UCGU--------CCGG- -5'
30542 3' -54.2 NC_006548.1 + 24047 0.66 0.598398
Target:  5'- cCUGCCCcuggacgaguUGGCAGucGC-GAGCgccugccAGGCCg -3'
miRNA:   3'- -GACGGGuu--------ACCGUU--UGaCUCG-------UCCGG- -5'
30542 3' -54.2 NC_006548.1 + 21353 0.66 0.596099
Target:  5'- -cGCCCAggGGCGAGCgguugccgcgacucUGccGCcGGCCg -3'
miRNA:   3'- gaCGGGUuaCCGUUUG--------------ACu-CGuCCGG- -5'
30542 3' -54.2 NC_006548.1 + 25324 0.67 0.588066
Target:  5'- uUGCCCAGgcGGCAGAUgucGAGCuGGa- -3'
miRNA:   3'- gACGGGUUa-CCGUUUGa--CUCGuCCgg -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.